Gen 4->5 | PKHeX vs Transfer Lab

[Kaiousama]

Is there any difference in the data of a Pokemon you transferred legitimately through the Transfer Lab for Gen 4->5, compared to just dragging the Pokemon between the two save files in PKHeX? 

My end goal is a fully self-caught living dex that will eventually get stored in the Pokemon Bank, so I want to be sure nothing ever "taints" my Pokemon files that could cause an issue long down the road.  I do have the ability to copy my save file onto a DS cartridge and do a legitimate Transfer Lab move, but doing that mini game for a couple hundred Pokemon is something I'd rather avoid.

Edited January 21, 2019 by Kaiousama

[Poke J]

@Kaiousama As far as it is know PKHeX does gen 4->5 conversion correctly, but no one is a fortune teller so no one can tell you if there will be a problem down the road.  Though it is highly unlikely since no issues have came up yet.  But, as you said you don’t want anything that will “taint” your Pokémon you should transfer them by playing the mini game.

[Sabresite]

The only thing PKHex doesn't handle is trash data. It doesn't matter though cause as soon as you move to gen 6+/bank, the Pokemon trash data is then determined by the app that retrieves the Pokemon from bank.

So for practical purposes PKHex is exact.